Grouping of genomic markers in populations with family structure.

ABSTRACT:

Background

Linkage and linkage disequilibrium (LD) between genome regions cause dependencies among genomic markers. Due to family stratification in populations with non-random mating in livestock or crop, the standard measures of population LD such as [Formula: see text] may be biased. Grouping of markers according to their interdependence needs to account for the actual population structure in order to allow proper inference in genome-based evaluations.

Results

Given a matrix reflecting the strength of association between markers, groups are built successively using a greedy algorithm; largest groups are built at first. As an option, a representative marker is selected for each group. We provide an implementation of the grouping approach as a new function to the R package h

SUBMITTER: Wittenburg D 

PROVIDER: S-EPMC7893918 | biostudies-literature | 2021 Feb

REPOSITORIES: biostudies-literature